RLG00000002405

Hydroxyproline-rich glycoprotein family protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr1
OG0006684
Physical Location & Seq
Forward (+)
33586184 .. 33590573
4390 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000002405

Sequence Viewer

Length: 1479 bp
ATGGTGCCGACGATTCAAATAAAGGCTGCCACTCAATATCTTCTTCAAATCGATTTTGTCCGCCTTACTGCCACTCAGATTTCAGAGAACACAAGTCGGCTGCAACTCAAAACCACCTTGGAGCTTCAAGCCTCGTCGTTTACTCCCACGTGCATCGCGTGTGGTTATGTGAGCATGTTACGAAGAGGCCTCACTTTCAATCACCTCCCCAAATCCGTACGACCAAGTGGGCTGCGAGGAAGAAGGCCCTATGCTAACAATGCCGCCGCCGCCGCCGAGGAACCAAACCCAGATGGCAACAAAGTCCGTGGGAGGAGGCTTAGCAAGAAGGAGCTCAAAGCCCTTGTGGAATCATTTGTCCACGAGTACAGAGCAATGAATGCGGGGAAATTCCCTCCCTTTAAGTATACTCAGAGACAAGTGGGTGGCAGTTACTATAGAATTAGGGGGATCCTCCAGGAGCTACAGTACTCGGCTAAAATGTCGCCCTCGTGTGGTGGGATTGAGCATTCGTTGGGAGGAGAGGGAATAAGAGGAAGTGAGTCTTTGACCGAAGTTGGAGGTGTCATTGCTCAAACTGTTTCTGAGACGGAAAATGACACAGATCTTAGTGTTGCCAGTGACGGGTGTTTAGAAGCTGAGGAAGAGTCCCCGACGTCCTCCTCAGTTGAGATCCTGTCCGAAGAAGTTATCACTCCAGGGAGAGGTTCTGATCTGGATGTCACACAAAGTAATATCTGGAAAGTGAATGCTGAGGAATCTTCATATATAGGCCCTGATATGGAGGAACTTAAGAAAACTCAATCTGTCTCTATTGCTCCAGGATGTGAGATGTTACAAGGAGGATTTGATGTTATTTCTCGTTCACATGACAAATCTGAGGATGGTAAAAGGGAGGAAGCTCAGGCTGATCGACATGAATATGTCTCTAAAGAAAAGCATCTACATATAGGGGAAACTAATACAGCCTCTCCAAGTTCTGATGATACGGAGGATATTACTAAACTGGATCTTGATGATTCCCAGTGTAAAATGAAGCAACATGATGAGACGCCTCAGGCTGATCGACTTGATTCCATTGCTGCAGAAAAACATCTACCAATAGAGGAAACTAATAGAGTCTCTTCAAGTTCTGATGATATAGAGGATGTTACTGTACCACATCTTGATGATTCAAAGTGTAAAATGGACCCGCATGAAGAGATCCCTCAGGCTGATCGACTTGATTTTGTTGCTAAAGAAAAACATTTACCAATTGGGGAAACTGATAGAGCCTCTCGAAGTTCTGGTAATACTGTTGTTACTAAATCAGATCTTGATGATTCAAAGTCTATAGTGGAGCAACATGAAGAGATTCCTCAGGCAGACAAACTATCCAAGCTGGCTGATGATGCAGAACCTCCAAAAAGATCAACAACTCTATGGGGTGCTATGAAATCGTTTGCGGATGGAATTATCAGTATTTTCAGACAACAGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
No domains found.

Protein Analysis

493

Amino Acids

54.17

Weight (kDa)

5.02

Isoelectric Point (pI)

57.97

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HTH_AT3G52170 PF25896 108 - 157 1.4e-22 Helix-turn-helix domain in AT3G52170-like protein
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 659
AccB1I GGYRCC 1 cut(s) 4
AccI GTMKAC 1 cut(s) 407
AccII CGCG 1 cut(s) 158
AciI CCGC 8 cut(s) 61, 264, 267, 270, 273, 383, 1193, 1445
AclWI GGATC 5 cut(s) 445, 458, 667, 1017, 1198
AcsI RAATTY 1 cut(s) 389
AcvI CACGTG 1 cut(s) 150
AcyI GRCGYC 2 cut(s) 656, 1052
AfaI GTAC 4 cut(s) 219, 368, 470, 1158
AfiI CCNNNNNNNGG 4 cut(s) 494, 624, 704, 781
AflII CTTAAG 1 cut(s) 791
AgsI TTSAA 7 cut(s) 17, 47, 128, 199, 1128, 1176, 1326
AjnI CCWGG 3 cut(s) 456, 697, 820
AluBI AGCT 6 cut(s) 124, 334, 463, 638, 902, 1381
AluI AGCT 6 cut(s) 124, 334, 463, 638, 902, 1381
Alw21I GWGCWC 1 cut(s) 336
Alw26I GTCTC 6 cut(s) 409, 581, 814, 931, 1043, 1126
AlwI GGATC 5 cut(s) 445, 458, 667, 1017, 1198
AoxI GGCC 3 cut(s) 187, 245, 772
ApeKI GCWGC 4 cut(s) 26, 100, 232, 1082
ApoI RAATTY 1 cut(s) 389
Asp700I GAANNNNTTC 1 cut(s) 1353
AspS9I GGNCC 3 cut(s) 246, 773, 1189
AsuHPI GGTGA 1 cut(s) 194
AvaII GGWCC 1 cut(s) 1189
AxyI CCTNAGG 3 cut(s) 1056, 1209, 1359
BamHI GGATCC 1 cut(s) 450
BanI GGYRCC 1 cut(s) 4
BanII GRGCYC 1 cut(s) 336
BauI CACGAG 2 cut(s) 362, 490
BbrPI CACGTG 1 cut(s) 150
Bbv12I GWGCWC 1 cut(s) 336
BbvCI CCTCAGC 2 cut(s) 639, 753
BbvI GCAGC 4 cut(s) 13, 87, 219, 1069
BccI CCATC 3 cut(s) 287, 878, 1442
BciT130I CCWGG 3 cut(s) 458, 699, 822
BcoDI GTCTC 6 cut(s) 409, 581, 814, 931, 1043, 1126
BfmI CTRYAG 4 cut(s) 436, 464, 1083, 1332
BfrI CTTAAG 1 cut(s) 791
BglII AGATCT 2 cut(s) 604, 1312
BisI GCNGC 8 cut(s) 27, 101, 233, 264, 267, 270, 273, 1083
BlpI GCTNAGC 1 cut(s) 320
BlsI GCNGC 8 cut(s) 28, 102, 234, 265, 268, 271, 274, 1084
BmcAI AGTACT 1 cut(s) 470
Bme1390I CCNGG 3 cut(s) 458, 699, 822
Bme18I GGWCC 1 cut(s) 1189
BmgT120I GGNCC 3 cut(s) 246, 773, 1189
BmiI GGNNCC 4 cut(s) 6, 282, 452, 1191
BmrFI CCNGG 3 cut(s) 458, 699, 822
BmrI ACTGGG 1 cut(s) 1018
BmsI GCATC 3 cut(s) 162, 949, 1381
BmuI ACTGGG 1 cut(s) 1018
BpmI CTGGAG 3 cut(s) 440, 681, 804
Bpu10I CCTNAGC 3 cut(s) 639, 753, 903
Bpu1102I GCTNAGC 1 cut(s) 320
Bsa29I ATCGAT 1 cut(s) 51
BsaAI YACGTR 1 cut(s) 150
BsaHI GRCGYC 2 cut(s) 656, 1052
BsaJI CCNNGG 4 cut(s) 117, 276, 307, 698
BsaXI ACNNNNNCTCC 4 cut(s) 452, 482, 955, 985
Bsc4I CCNNNNNNNGG 4 cut(s) 494, 624, 704, 781
Bse1I ACTGG 3 cut(s) 618, 1011, 1024
Bse21I CCTNAGG 3 cut(s) 1056, 1209, 1359
Bse3DI GCAATG 3 cut(s) 381, 567, 1077
BseBI CCWGG 3 cut(s) 458, 699, 822
BseCI ATCGAT 1 cut(s) 51
BseDI CCNNGG 4 cut(s) 117, 276, 307, 698
BseGI GGATG 5 cut(s) 724, 830, 889, 1153, 1453
BseLI CCNNNNNNNGG 4 cut(s) 494, 624, 704, 781
BseMI GCAATG 3 cut(s) 381, 567, 1077
BseNI ACTGG 3 cut(s) 618, 1011, 1024
BseRI GAGGAG 3 cut(s) 328, 534, 652
BseXI GCAGC 4 cut(s) 13, 87, 219, 1069
Bsh1236I CGCG 1 cut(s) 158
BshFI GGCC 3 cut(s) 189, 247, 774
BshNI GGYRCC 1 cut(s) 4
BshVI ATCGAT 1 cut(s) 51
BsiHKAI GWGCWC 1 cut(s) 336
BsiWI CGTACG 1 cut(s) 217
BslFI GGGAC 1 cut(s) 634
BslI CCNNNNNNNGG 4 cut(s) 494, 624, 704, 781
BsmAI GTCTC 6 cut(s) 409, 581, 814, 931, 1043, 1126
BsmBI CGTCTC 2 cut(s) 581, 1043
BsmFI GGGAC 1 cut(s) 634
BsmI GAATGC 3 cut(s) 385, 508, 754
BsnI GGCC 3 cut(s) 189, 247, 774
Bsp1286I GDGCHC 1 cut(s) 336
Bsp1720I GCTNAGC 1 cut(s) 320
BspACI CCGC 8 cut(s) 61, 264, 267, 270, 273, 383, 1193, 1445
BspANI GGCC 3 cut(s) 189, 247, 774
BspDI ATCGAT 1 cut(s) 51
BspFNI CGCG 1 cut(s) 158
BspLI GGNNCC 4 cut(s) 6, 282, 452, 1191
BspMAI CTGCAG 1 cut(s) 1087
BspPI GGATC 5 cut(s) 445, 458, 667, 1017, 1198
BspT107I GGYRCC 1 cut(s) 4
BspTI CTTAAG 1 cut(s) 791
BsrDI GCAATG 3 cut(s) 381, 567, 1077
BsrI ACTGG 3 cut(s) 618, 1011, 1024
BssECI CCNNGG 4 cut(s) 117, 276, 307, 698
BssNAI GTATAC 1 cut(s) 408
BssNI GRCGYC 2 cut(s) 656, 1052
BssSI CACGAG 2 cut(s) 362, 490
BssT1I CCWWGG 1 cut(s) 117
Bst1107I GTATAC 1 cut(s) 408
Bst2BI CACGAG 2 cut(s) 362, 490
Bst2UI CCWGG 3 cut(s) 458, 699, 822
Bst4CI ACNGT 5 cut(s) 468, 580, 1156, 1297, 1476
Bst6I CTCTTC 5 cut(s) 178, 639, 1129, 1194, 1344
BstACI GRCGYC 2 cut(s) 656, 1052
BstAFI CTTAAG 1 cut(s) 791
BstAPI GCANNNNNTGC 1 cut(s) 380
BstBAI YACGTR 1 cut(s) 150
BstC8I GCNNGC 1 cut(s) 1383
BstDSI CCRYGG 1 cut(s) 307
BstF5I GGATG 5 cut(s) 724, 830, 889, 1153, 1453
BstFNI CGCG 1 cut(s) 158
BstMAI GTCTC 6 cut(s) 409, 581, 814, 931, 1043, 1126
BstMWI GCNNNNNNNGC 5 cut(s) 260, 269, 272, 380, 1391
BstNI CCWGG 3 cut(s) 458, 699, 822
BstNSI RCATGY 1 cut(s) 178
BstSCI CCNGG 3 cut(s) 456, 697, 820
BstSFI CTRYAG 4 cut(s) 436, 464, 1083, 1332
BstUI CGCG 1 cut(s) 158
BstV1I GCAGC 4 cut(s) 13, 87, 219, 1069
BstX2I RGATCY 6 cut(s) 450, 604, 672, 1009, 1203, 1312
BstYI RGATCY 6 cut(s) 450, 604, 672, 1009, 1203, 1312
BstZ17I GTATAC 1 cut(s) 408
Bsu15I ATCGAT 1 cut(s) 51
Bsu36I CCTNAGG 3 cut(s) 1056, 1209, 1359
BsuRI GGCC 3 cut(s) 189, 247, 774
BsuTUI ATCGAT 1 cut(s) 51
BtgI CCRYGG 1 cut(s) 307
BtgZI GCGATG 1 cut(s) 139
BtsCI GGATG 5 cut(s) 724, 830, 889, 1153, 1453
BtsIMutI CAGTG 2 cut(s) 625, 1031
Cac8I GCNNGC 1 cut(s) 1383
Cfr13I GGNCC 3 cut(s) 246, 773, 1189
ClaI ATCGAT 1 cut(s) 51
CseI GACGC 1 cut(s) 1060
Csp6I GTAC 4 cut(s) 218, 367, 469, 1157
CspCI CAANNNNNGTGG 2 cut(s) 289, 324
CviAII CATG 6 cut(s) 175, 869, 917, 1043, 1196, 1346
CviQI GTAC 4 cut(s) 218, 367, 469, 1157
Eam1104I CTCTTC 5 cut(s) 178, 639, 1129, 1194, 1344
EarI CTCTTC 5 cut(s) 178, 639, 1129, 1194, 1344
EciI GGCGGA 1 cut(s) 50
Ecl136II GAGCTC 1 cut(s) 334
Eco130I CCWWGG 1 cut(s) 117
Eco147I AGGCCT 1 cut(s) 189
Eco24I GRGCYC 1 cut(s) 336
Eco47I GGWCC 1 cut(s) 1189
Eco53kI GAGCTC 1 cut(s) 334
Eco72I CACGTG 1 cut(s) 150
Eco81I CCTNAGG 3 cut(s) 1056, 1209, 1359
EcoICRI GAGCTC 1 cut(s) 334
EcoO109I RGGNCCY 2 cut(s) 246, 773
EcoRII CCWGG 3 cut(s) 456, 697, 820
EcoT14I CCWWGG 1 cut(s) 117
EcoT38I GRGCYC 1 cut(s) 336
ErhI CCWWGG 1 cut(s) 117
Esp3I CGTCTC 2 cut(s) 581, 1043
FaeI CATG 6 cut(s) 178, 872, 920, 1046, 1199, 1349
FalI AAGNNNNNCTT 2 cut(s) 529, 561
FaqI GGGAC 1 cut(s) 634
FatI CATG 6 cut(s) 174, 868, 916, 1042, 1195, 1345
FauI CCCGC 2 cut(s) 376, 1200
FblI GTMKAC 1 cut(s) 407
Fnu4HI GCNGC 8 cut(s) 27, 101, 233, 264, 267, 270, 273, 1083
FokI GGATG 5 cut(s) 731, 837, 896, 1160, 1460
FriOI GRGCYC 1 cut(s) 336
Fsp4HI GCNGC 8 cut(s) 27, 101, 233, 264, 267, 270, 273, 1083
GluI GCNGC 8 cut(s) 27, 101, 233, 264, 267, 270, 273, 1083
GsuI CTGGAG 3 cut(s) 440, 681, 804
HaeIII GGCC 3 cut(s) 189, 247, 774
HgaI GACGC 1 cut(s) 1060
Hin1I GRCGYC 2 cut(s) 656, 1052
Hin1II CATG 6 cut(s) 178, 872, 920, 1046, 1199, 1349
HphI GGTGA 1 cut(s) 194
Hpy166II GTNNAC 4 cut(s) 141, 361, 408, 866
Hpy188III TCNNGA 6 cut(s) 716, 739, 1013, 1166, 1278, 1316
Hpy8I GTNNAC 4 cut(s) 141, 361, 408, 866
Hpy99I CGWCG 3 cut(s) 13, 139, 658
HpyAV CCTTC 2 cut(s) 237, 322
HpyCH4III ACNGT 5 cut(s) 468, 580, 1156, 1297, 1476
HpyCH4IV ACGT 2 cut(s) 149, 656
HpyCH4V TGCA 4 cut(s) 103, 153, 1085, 1394
HpyF10VI GCNNNNNNNGC 5 cut(s) 260, 269, 272, 380, 1391
HpySE526I ACGT 2 cut(s) 149, 656
Hsp92I GRCGYC 2 cut(s) 656, 1052
Hsp92II CATG 6 cut(s) 178, 872, 920, 1046, 1199, 1349
LmnI GCTCC 5 cut(s) 121, 331, 460, 823, 1339
Lsp1109I GCAGC 4 cut(s) 13, 87, 219, 1069
LweI GCATC 3 cut(s) 162, 949, 1381
MaeII ACGT 2 cut(s) 149, 656
MaeIII GTNAC 7 cut(s) 177, 431, 620, 721, 834, 1150, 1300
MfeI CAATTG 1 cut(s) 1254
MflI RGATCY 6 cut(s) 450, 604, 672, 1009, 1203, 1312
MhlI GDGCHC 1 cut(s) 336
MluCI AATT 4 cut(s) 389, 441, 1254, 1452
MlyI GAGTC 3 cut(s) 551, 656, 1128
MmeI TCCRAC 1 cut(s) 538
MroXI GAANNNNTTC 1 cut(s) 1353
MseI TTAA 2 cut(s) 402, 792
MslI CAYNNNNRTG 2 cut(s) 921, 1167
MspCI CTTAAG 1 cut(s) 791
MspR9I CCNGG 3 cut(s) 458, 699, 822
MunI CAATTG 1 cut(s) 1254
Mva1269I GAATGC 3 cut(s) 385, 508, 754
MvaI CCWGG 3 cut(s) 458, 699, 822
MvnI CGCG 1 cut(s) 158
MwoI GCNNNNNNNGC 5 cut(s) 260, 269, 272, 380, 1391
NlaIII CATG 6 cut(s) 178, 872, 920, 1046, 1199, 1349
NlaIV GGNNCC 4 cut(s) 6, 282, 452, 1191
NmeAIII GCCGAG 2 cut(s) 301, 452
NmuCI GTSAC 2 cut(s) 620, 721
NspI RCATGY 1 cut(s) 178
PceI AGGCCT 1 cut(s) 189
PcsI WCGNNNNNNNCGW 1 cut(s) 155
PctI GAATGC 3 cut(s) 385, 508, 754
PdmI GAANNNNTTC 1 cut(s) 1353
PfeI GAWTC 8 cut(s) 13, 350, 758, 1019, 1073, 1172, 1322, 1354
Pfl23II CGTACG 1 cut(s) 217
PfoI TCCNGGA 2 cut(s) 456, 820
PkrI GCNGC 8 cut(s) 28, 102, 234, 265, 268, 271, 274, 1084
PleI GAGTC 3 cut(s) 550, 655, 1127
PmaCI CACGTG 1 cut(s) 150
PmlI CACGTG 1 cut(s) 150
PpsI GAGTC 3 cut(s) 550, 655, 1127
Ppu21I YACGTR 1 cut(s) 150
Psp124BI GAGCTC 1 cut(s) 336
Psp6I CCWGG 3 cut(s) 456, 697, 820
PspCI CACGTG 1 cut(s) 150
PspGI CCWGG 3 cut(s) 456, 697, 820
PspLI CGTACG 1 cut(s) 217
PspN4I GGNNCC 4 cut(s) 6, 282, 452, 1191
PspPI GGNCC 3 cut(s) 246, 773, 1189
PstI CTGCAG 1 cut(s) 1087
PsuI RGATCY 6 cut(s) 450, 604, 672, 1009, 1203, 1312
RsaI GTAC 4 cut(s) 219, 368, 470, 1158
RsaNI GTAC 4 cut(s) 218, 367, 469, 1157
RseI CAYNNNNRTG 2 cut(s) 921, 1167
SacI GAGCTC 1 cut(s) 336
SaqAI TTAA 2 cut(s) 402, 792
SatI GCNGC 8 cut(s) 27, 101, 233, 264, 267, 270, 273, 1083
Sau96I GGNCC 3 cut(s) 246, 773, 1189
ScaI AGTACT 1 cut(s) 470
SchI GAGTC 3 cut(s) 551, 656, 1128
ScrFI CCNGG 3 cut(s) 458, 699, 822
SduI GDGCHC 1 cut(s) 336
SfaNI GCATC 3 cut(s) 162, 949, 1381
SfcI CTRYAG 4 cut(s) 436, 464, 1083, 1332
SinI GGWCC 1 cut(s) 1189
SmiMI CAYNNNNRTG 2 cut(s) 921, 1167
SmlI CTYRAG 1 cut(s) 791
SmoI CTYRAG 1 cut(s) 791
Sse9I AATT 4 cut(s) 389, 441, 1254, 1452
SseBI AGGCCT 1 cut(s) 189
SsiI CCGC 8 cut(s) 61, 264, 267, 270, 273, 383, 1193, 1445
SstI GAGCTC 1 cut(s) 336
StuI AGGCCT 1 cut(s) 189
StyD4I CCNGG 3 cut(s) 456, 697, 820
StyI CCWWGG 1 cut(s) 117
TaaI ACNGT 5 cut(s) 468, 580, 1156, 1297, 1476
TaiI ACGT 2 cut(s) 152, 659
TaqI TCGA 5 cut(s) 51, 913, 1066, 1219, 1279
TaqII GACCGA 1 cut(s) 566
TasI AATT 4 cut(s) 389, 441, 1254, 1452
TatI WGTACW 2 cut(s) 366, 468
TauI GCSGC 4 cut(s) 266, 269, 272, 275
TfiI GAWTC 8 cut(s) 13, 350, 758, 1019, 1073, 1172, 1322, 1354
Tru1I TTAA 2 cut(s) 402, 792
Tru9I TTAA 2 cut(s) 402, 792
TscAI CASTG 2 cut(s) 625, 1031
TseFI GTSAC 2 cut(s) 620, 721
TseI GCWGC 4 cut(s) 26, 100, 232, 1082
Tsp45I GTSAC 2 cut(s) 620, 721
TspDTI ATGAA 7 cut(s) 392, 753, 933, 1049, 1212, 1362, 1448
TspGWI ACGGA 4 cut(s) 205, 296, 605, 1004
TspRI CASTG 2 cut(s) 625, 1031
Vha464I CTTAAG 1 cut(s) 791
VpaK11BI GGWCC 1 cut(s) 1189
XapI RAATTY 1 cut(s) 389
XceI RCATGY 1 cut(s) 178
XmiI GTMKAC 1 cut(s) 407
XmnI GAANNNNTTC 1 cut(s) 1353
ZraI GACGTC 1 cut(s) 657
ZrmI AGTACT 1 cut(s) 470
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.